AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene007067


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007067.t1 MTR_0699s0020 98.214 112 2 0 1 112 1 112 2.44e-78 226
MS.gene007067.t1 MTR_0699s0010 97.321 112 3 0 1 112 1 112 1.13e-77 224
MS.gene007067.t1 MTR_5g081705 92.857 112 8 0 1 112 26 137 6.21e-76 221
MS.gene007067.t1 MTR_5g081705 92.929 99 7 0 1 99 26 124 2.20e-66 196
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007067.t1 AT1G74270 91.964 112 9 0 1 112 1 112 2.67e-73 213
MS.gene007067.t1 AT1G07070 91.071 112 10 0 1 112 1 112 2.79e-73 213
MS.gene007067.t1 AT3G55750 87.387 111 14 0 2 112 1 111 2.07e-70 206
MS.gene007067.t1 AT1G41880 86.486 111 15 0 2 112 1 111 2.85e-70 205
MS.gene007067.t1 AT1G41880 86.486 111 15 0 2 112 1 111 2.85e-70 205

Find 45 sgRNAs with CRISPR-Local

Find 98 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGATTTGATTTGAATT+TGG 0.236788 7.3:+6848703 None:intergenic
TGGTGTTCACTCCTTCAATT+TGG 0.242520 7.3:+6848861 None:intergenic
GTAAATTATTACCATTGATT+TGG 0.266957 7.3:+6848679 None:intergenic
TAAATTATTACCATTGATTT+GGG 0.343670 7.3:+6848680 None:intergenic
GCCCCATATGCAACGGTAAT+GGG 0.353096 7.3:+6848766 None:intergenic
GAACCCATTACCGTTGCATA+TGG 0.373177 7.3:-6848769 MS.gene007067:CDS
CCAGAGATGTGTTTGGGTAC+TGG 0.398125 7.3:+6848885 None:intergenic
TTGGTATGCCGGCAAGAAAA+TGG 0.404436 7.3:-6848825 MS.gene007067:CDS
ATTTGGACCAGAGATGTGTT+TGG 0.405595 7.3:+6848878 None:intergenic
GGTTTACCTCATATGTTACT+TGG 0.405992 7.3:+6848556 None:intergenic
GACATCAAGGAGAGCGTGTC+AGG 0.412439 7.3:-6850030 MS.gene007067:intron
TTTGGACCAGAGATGTGTTT+GGG 0.422500 7.3:+6848879 None:intergenic
TGCCCCATATGCAACGGTAA+TGG 0.448613 7.3:+6848765 None:intergenic
AACCCATTACCGTTGCATAT+GGG 0.460048 7.3:-6848768 MS.gene007067:CDS
ACATCTCTGGTCCAAATTGA+AGG 0.462436 7.3:-6848872 MS.gene007067:CDS
TACGTGAGGGGTACAATCCT+TGG 0.470557 7.3:-6849031 MS.gene007067:CDS
GTACAATCCTTGGATACAAA+AGG 0.498010 7.3:-6849021 MS.gene007067:intron
ATACCAAGCTACCTCTTCCT+TGG 0.508204 7.3:+6848841 None:intergenic
GAAGAGGTAGCTTGGTATGC+CGG 0.510952 7.3:-6848836 MS.gene007067:CDS
GGTTCCGTTCTTCTTCACCT+TGG 0.512346 7.3:+6848787 None:intergenic
AAATCTTCCTCCCAAATCAA+TGG 0.516979 7.3:-6848690 MS.gene007067:intron
GTTTGGGTACTGGTTTACTT+TGG 0.518411 7.3:+6848895 None:intergenic
ACCCATTACCGTTGCATATG+GGG 0.524799 7.3:-6848767 MS.gene007067:CDS
GCATATGGGGCAAGGTTACA+AGG 0.526923 7.3:-6848754 MS.gene007067:CDS
CCAGTACCCAAACACATCTC+TGG 0.530530 7.3:-6848885 MS.gene007067:CDS
GTTTACCTCATATGTTACTT+GGG 0.533773 7.3:+6848557 None:intergenic
TTGTATTAGGCTTTACGTGA+GGG 0.535618 7.3:-6849044 MS.gene007067:intron
AGGAGTGAACACCAAGGAAG+AGG 0.555068 7.3:-6848852 MS.gene007067:CDS
AAGATGGTGAAGGGACATCA+AGG 0.560756 7.3:-6850043 MS.gene007067:CDS
ATGTACCCAAGTAACATATG+AGG 0.563414 7.3:-6848562 None:intergenic
GGCAAGGTTACAAGGCCTCA+TGG 0.577972 7.3:-6848746 MS.gene007067:CDS
GGCTTATATCTACAAGGCCA+AGG 0.589370 7.3:-6848804 MS.gene007067:CDS
TTTGTATTAGGCTTTACGTG+AGG 0.589429 7.3:-6849045 MS.gene007067:intron
TTACCGTTGCATATGGGGCA+AGG 0.593071 7.3:-6848762 MS.gene007067:CDS
ACACCAAGGAAGAGGTAGCT+TGG 0.593143 7.3:-6848844 MS.gene007067:CDS
TGTATTAGGCTTTACGTGAG+GGG 0.606295 7.3:-6849043 MS.gene007067:intron
GAAAATGGCTTATATCTACA+AGG 0.607003 7.3:-6848810 MS.gene007067:CDS
TGCTGCTGTGAAGATGGTGA+AGG 0.610958 7.3:-6850053 None:intergenic
ATTATTACCATTGATTTGGG+AGG 0.614066 7.3:+6848683 None:intergenic
AAGGCCAAGGTGAAGAAGAA+CGG 0.630167 7.3:-6848791 MS.gene007067:CDS
GCTGCTGTGAAGATGGTGAA+GGG 0.647917 7.3:-6850052 None:intergenic
TAACCTTGCCCCATATGCAA+CGG 0.648972 7.3:+6848759 None:intergenic
ACAAGGCCTCATGGTAACAG+TGG 0.675929 7.3:-6848737 MS.gene007067:CDS
ACAACACCACTGTTACCATG+AGG 0.745672 7.3:+6848731 None:intergenic
AATTGAAGGAGTGAACACCA+AGG 0.776962 7.3:-6848858 MS.gene007067:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAGAAAAAAAAATGTGT+TGG + chr7.3:6849950-6849969 None:intergenic 15.0%
!! GATGAAAATACAAATAAAAA+TGG + chr7.3:6848615-6848634 None:intergenic 15.0%
!! TATAGAAAAGGAAAAAATAA+AGG + chr7.3:6849092-6849111 None:intergenic 15.0%
!!! TAAAGCTATTTTTATAGAAA+AGG + chr7.3:6849104-6849123 None:intergenic 15.0%
!!! TAAATTATTACCATTGATTT+GGG + chr7.3:6849927-6849946 None:intergenic 15.0%
!!! TATCATTGTTTTAATTCATT+TGG - chr7.3:6848669-6848688 MS.gene007067:intron 15.0%
!!! TATCTGTTTTATTTTATGTT+TGG - chr7.3:6849622-6849641 MS.gene007067:intron 15.0%
!!! TTTATTTTTAGTTTATAGAC+TGG - chr7.3:6848751-6848770 MS.gene007067:CDS 15.0%
!!! TTTTGGTTTTATTTTTGTTA+GGG - chr7.3:6849333-6849352 MS.gene007067:intron 15.0%
!! AAAAGACACAAAAACATATT+TGG + chr7.3:6849446-6849465 None:intergenic 20.0%
!! AAATATAGCTGCTAAAAAAT+TGG + chr7.3:6849225-6849244 None:intergenic 20.0%
!! AATATAGCTGCTAAAAAATT+GGG + chr7.3:6849224-6849243 None:intergenic 20.0%
!! TTTCTTGTTCAATTTGTATT+AGG - chr7.3:6849547-6849566 MS.gene007067:intron 20.0%
!!! ATTTTTGTTAGGGATTAAAT+TGG - chr7.3:6849343-6849362 MS.gene007067:intron 20.0%
!!! CTTTTGGTTTTATTTTTGTT+AGG - chr7.3:6849332-6849351 MS.gene007067:intron 20.0%
!!! GTAAATTATTACCATTGATT+TGG + chr7.3:6849928-6849947 None:intergenic 20.0%
!!! TTTTTGTTAGGGATTAAATT+GGG - chr7.3:6849344-6849363 MS.gene007067:intron 20.0%
! AGTATCACAAAAACTTATGT+TGG + chr7.3:6848888-6848907 None:intergenic 25.0%
! GAAAAAAAGAAAAGAGAAGT+AGG + chr7.3:6848995-6849014 None:intergenic 25.0%
! TAGTCCAGTTATAAAAATGT+CGG + chr7.3:6849281-6849300 None:intergenic 25.0%
!!! AGGAAGATTTGATTTGAATT+TGG + chr7.3:6849904-6849923 None:intergenic 25.0%
AAAATATTGTGGGACGAAAA+TGG - chr7.3:6849371-6849390 MS.gene007067:intron 30.0%
AAATATTGTGGGACGAAAAT+GGG - chr7.3:6849372-6849391 MS.gene007067:intron 30.0%
ACAAAAATGAAAACTGAACC+TGG - chr7.3:6849252-6849271 MS.gene007067:intron 30.0%
ACATTAGCATGCAGTTAATA+AGG - chr7.3:6848716-6848735 MS.gene007067:CDS 30.0%
AGTCCAGTTATAAAAATGTC+GGG + chr7.3:6849280-6849299 None:intergenic 30.0%
ATCACAAAAACTTATGTTGG+TGG + chr7.3:6848885-6848904 None:intergenic 30.0%
CATTAGCATGCAGTTAATAA+GGG - chr7.3:6848717-6848736 MS.gene007067:CDS 30.0%
GAAAATGGCTTATATCTACA+AGG - chr7.3:6849794-6849813 MS.gene007067:intron 30.0%
! AAGTTTACCTTTTGTATCCA+AGG + chr7.3:6849593-6849612 None:intergenic 30.0%
! GTTTGGTTTATGAAAATGTC+TGG - chr7.3:6849639-6849658 MS.gene007067:intron 30.0%
! GTTTTTGTGATACTGTTGTT+TGG - chr7.3:6848894-6848913 MS.gene007067:CDS 30.0%
!! ATTATTACCATTGATTTGGG+AGG + chr7.3:6849924-6849943 None:intergenic 30.0%
!! GTTCAGTTTTCATTTTTGTC+AGG + chr7.3:6849251-6849270 None:intergenic 30.0%
!!! ATGCTATGAGCTGTTTTTAT+AGG + chr7.3:6849053-6849072 None:intergenic 30.0%
!!! TTATCTTGACTTTTTGAGTG+TGG - chr7.3:6849987-6850006 MS.gene007067:intron 30.0%
AAATCTTCCTCCCAAATCAA+TGG - chr7.3:6849914-6849933 MS.gene007067:intron 35.0%
AAATGTCTGGTTAGATGCTT+TGG - chr7.3:6849652-6849671 MS.gene007067:intron 35.0%
AACATGCCCTTAATACTTTG+TGG - chr7.3:6849176-6849195 MS.gene007067:intron 35.0%
AATTGGGTCGCAAAATATTG+TGG - chr7.3:6849360-6849379 MS.gene007067:intron 35.0%
ACTGCATGCTAATGTTTGAA+TGG + chr7.3:6848711-6848730 None:intergenic 35.0%
AGAACTTGTGAAAATCAGCT+GGG + chr7.3:6848963-6848982 None:intergenic 35.0%
ATAGCTGCTAAAAAATTGGG+AGG + chr7.3:6849221-6849240 None:intergenic 35.0%
ATTGGGTCGCAAAATATTGT+GGG - chr7.3:6849361-6849380 MS.gene007067:intron 35.0%
GTACAATCCTTGGATACAAA+AGG - chr7.3:6849583-6849602 MS.gene007067:intron 35.0%
GTCCAGTTATAAAAATGTCG+GGG + chr7.3:6849279-6849298 None:intergenic 35.0%
TCAAATAAGCCAATCCAAAC+AGG + chr7.3:6848856-6848875 None:intergenic 35.0%
TTGTATTAGGCTTTACGTGA+GGG - chr7.3:6849560-6849579 MS.gene007067:intron 35.0%
TTTGTATTAGGCTTTACGTG+AGG - chr7.3:6849559-6849578 MS.gene007067:intron 35.0%
! ATCGCTCCACAAAGTATTAA+GGG + chr7.3:6849185-6849204 None:intergenic 35.0%
! CAAAGTATTAAGGGCATGTT+TGG + chr7.3:6849176-6849195 None:intergenic 35.0%
!! GATATAAGCCATTTTCTTGC+CGG + chr7.3:6849790-6849809 None:intergenic 35.0%
AAAATTGGGAGGACCAACAT+AGG + chr7.3:6849210-6849229 None:intergenic 40.0%
AACCCATTACCGTTGCATAT+GGG - chr7.3:6849836-6849855 MS.gene007067:intron 40.0%
AATTGAAGGAGTGAACACCA+AGG - chr7.3:6849746-6849765 MS.gene007067:intron 40.0%
ACATCTCTGGTCCAAATTGA+AGG - chr7.3:6849732-6849751 MS.gene007067:intron 40.0%
ACTGATGTCTAATGCCTGTT+TGG - chr7.3:6848839-6848858 MS.gene007067:CDS 40.0%
ATTTGGACCAGAGATGTGTT+TGG + chr7.3:6849729-6849748 None:intergenic 40.0%
CTTAATACTTTGTGGAGCGA+TGG - chr7.3:6849184-6849203 MS.gene007067:intron 40.0%
GAACTTGTGAAAACAGCTCA+TGG - chr7.3:6848918-6848937 MS.gene007067:intron 40.0%
GAGAACTTGTGAAAATCAGC+TGG + chr7.3:6848964-6848983 None:intergenic 40.0%
TCGCTAGTATGAAGATCTCT+GGG - chr7.3:6849306-6849325 MS.gene007067:intron 40.0%
TGGTGTTCACTCCTTCAATT+TGG + chr7.3:6849746-6849765 None:intergenic 40.0%
TGTATTAGGCTTTACGTGAG+GGG - chr7.3:6849561-6849580 MS.gene007067:intron 40.0%
TGTCTAATGCCTGTTTGGAT+TGG - chr7.3:6848844-6848863 MS.gene007067:CDS 40.0%
TTATAAAAATGTCGGGGACC+AGG + chr7.3:6849273-6849292 None:intergenic 40.0%
TTTGGACCAGAGATGTGTTT+GGG + chr7.3:6849728-6849747 None:intergenic 40.0%
! CATCGCTCCACAAAGTATTA+AGG + chr7.3:6849186-6849205 None:intergenic 40.0%
! GTCCCCGACATTTTTATAAC+TGG - chr7.3:6849274-6849293 MS.gene007067:intron 40.0%
!! GTTTGGGTACTGGTTTACTT+TGG + chr7.3:6849712-6849731 None:intergenic 40.0%
AAGGCCAAGGTGAAGAAGAA+CGG - chr7.3:6849813-6849832 MS.gene007067:intron 45.0%
ACAACACCACTGTTACCATG+AGG + chr7.3:6849876-6849895 None:intergenic 45.0%
ACCCATTACCGTTGCATATG+GGG - chr7.3:6849837-6849856 MS.gene007067:intron 45.0%
ATACCAAGCTACCTCTTCCT+TGG + chr7.3:6849766-6849785 None:intergenic 45.0%
CAGCTCATGGCAATTATCAC+AGG - chr7.3:6848931-6848950 MS.gene007067:intron 45.0%
GAACCCATTACCGTTGCATA+TGG - chr7.3:6849835-6849854 MS.gene007067:intron 45.0%
GGCTTATATCTACAAGGCCA+AGG - chr7.3:6849800-6849819 MS.gene007067:intron 45.0%
GTCGCTAGTATGAAGATCTC+TGG - chr7.3:6849305-6849324 MS.gene007067:intron 45.0%
TAACCTTGCCCCATATGCAA+CGG + chr7.3:6849848-6849867 None:intergenic 45.0%
TTGGTATGCCGGCAAGAAAA+TGG - chr7.3:6849779-6849798 MS.gene007067:intron 45.0%
!! GAAGATCTCTGGGCTACTTT+TGG - chr7.3:6849316-6849335 MS.gene007067:intron 45.0%
ACAAGGCCTCATGGTAACAG+TGG - chr7.3:6849867-6849886 MS.gene007067:intron 50.0%
ACACCAAGGAAGAGGTAGCT+TGG - chr7.3:6849760-6849779 MS.gene007067:intron 50.0%
AGGAGTGAACACCAAGGAAG+AGG - chr7.3:6849752-6849771 MS.gene007067:intron 50.0%
CCAGAGATGTGTTTGGGTAC+TGG + chr7.3:6849722-6849741 None:intergenic 50.0%
CCAGTACCCAAACACATCTC+TGG - chr7.3:6849719-6849738 MS.gene007067:intron 50.0%
GAAGAGGTAGCTTGGTATGC+CGG - chr7.3:6849768-6849787 MS.gene007067:intron 50.0%
GCATATGGGGCAAGGTTACA+AGG - chr7.3:6849850-6849869 MS.gene007067:intron 50.0%
GCCCCATATGCAACGGTAAT+GGG + chr7.3:6849841-6849860 None:intergenic 50.0%
GGTTCCGTTCTTCTTCACCT+TGG + chr7.3:6849820-6849839 None:intergenic 50.0%
TGCCCCATATGCAACGGTAA+TGG + chr7.3:6849842-6849861 None:intergenic 50.0%
TTACCGTTGCATATGGGGCA+AGG - chr7.3:6849842-6849861 MS.gene007067:intron 50.0%
TTGAGTGTGGATGCATCGCA+GGG - chr7.3:6850000-6850019 MS.gene007067:intron 50.0%
TTTGAGTGTGGATGCATCGC+AGG - chr7.3:6849999-6850018 MS.gene007067:intron 50.0%
! TACGTGAGGGGTACAATCCT+TGG - chr7.3:6849573-6849592 MS.gene007067:intron 50.0%
GGCAAGGTTACAAGGCCTCA+TGG - chr7.3:6849858-6849877 MS.gene007067:intron 55.0%
TGTGGAGCGATGGCCTATGT+TGG - chr7.3:6849194-6849213 MS.gene007067:intron 55.0%
! GACATCAAGGAGAGCGTGTC+AGG - chr7.3:6848574-6848593 MS.gene007067:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 6848564 6850062 6848564 ID=MS.gene007067
chr7.3 mRNA 6848564 6850062 6848564 ID=MS.gene007067.t1;Parent=MS.gene007067
chr7.3 exon 6850031 6850062 6850031 ID=MS.gene007067.t1.exon1;Parent=MS.gene007067.t1
chr7.3 CDS 6850031 6850062 6850031 ID=cds.MS.gene007067.t1;Parent=MS.gene007067.t1
chr7.3 exon 6849022 6849057 6849022 ID=MS.gene007067.t1.exon2;Parent=MS.gene007067.t1
chr7.3 CDS 6849022 6849057 6849022 ID=cds.MS.gene007067.t1;Parent=MS.gene007067.t1
chr7.3 exon 6848691 6848919 6848691 ID=MS.gene007067.t1.exon3;Parent=MS.gene007067.t1
chr7.3 CDS 6848691 6848919 6848691 ID=cds.MS.gene007067.t1;Parent=MS.gene007067.t1
chr7.3 exon 6848564 6848605 6848564 ID=MS.gene007067.t1.exon4;Parent=MS.gene007067.t1
chr7.3 CDS 6848564 6848605 6848564 ID=cds.MS.gene007067.t1;Parent=MS.gene007067.t1
Gene Sequence

>MS.gene007067

ATGGTGAAGGGACATCAAGGAGAGCGTGTCAGGTACTCTTCGTTTCAGCCATTTTTATTTGTATTTTCATCATCATCGTATATGTTTTTGATCTTTAGTAGTAATTATCATTGTTTTAATTCATTTGGCTATAGCTAGTTACTACCATTCAAACATTAGCATGCAGTTAATAAGGGATTCGAATAGTTTTATTTTTAGTTTATAGACTGGTATTAAGAAAAAACATCGAGATCAATTTGTTGCTTGAGAAATGTTTTAGACTATTTTGATTTGTGACTGATGTCTAATGCCTGTTTGGATTGGCTTATTTGAGCTTATCCACCAACATAAGTTTTTGTGATACTGTTGTTTGGAGAACTTGTGAAAACAGCTCATGGCAATTATCACAGGCTTTTTCCCAGCTGATTTTCACAAGTTCTCAAATATCACCTACTTCTCTTTTCTTTTTTTCTTTTTTTTGTTGACAAAGAGTTTTCTTAAATAAAACCTATAAAAACAGCTCATAGCATATACAAAAATAATTTACCTTTATTTTTTCCTTTTCTATAAAAATAGCTTTATGTTCTCACGATAAGTGCTTGTGCTATAAGCTGCAAATAAGCAGTTTATCCAAACATGCCCTTAATACTTTGTGGAGCGATGGCCTATGTTGGTCCTCCCAATTTTTTAGCAGCTATATTTAATCCTGACAAAAATGAAAACTGAACCTGGTCCCCGACATTTTTATAACTGGACTAATTTGTCGCTAGTATGAAGATCTCTGGGCTACTTTTGGTTTTATTTTTGTTAGGGATTAAATTGGGTCGCAAAATATTGTGGGACGAAAATGGGTCTTCACTCTAGTATGTGCTACTGAATTGATAATTTGATTTCTTATGACCAAATATGTTTTTGTGTCTTTTACTCAAAGATCAGTCTGTGTATCTATCTTATTTTTTATGTATCTTTATTTTATCAAATATATAAAACAAGCTAATATATACTTTCTTGTTCAATTTGTATTAGGCTTTACGTGAGGGGTACAATCCTTGGATACAAAAGGTAAACTTTTCTAATGTTATCTGTTTTATTTTATGTTTGGTTTATGAAAATGTCTGGTTAGATGCTTTGGCTTAATACTTACTGTTTTATGCTGTTTTGTAGATCCAAAGTAAACCAGTACCCAAACACATCTCTGGTCCAAATTGAAGGAGTGAACACCAAGGAAGAGGTAGCTTGGTATGCCGGCAAGAAAATGGCTTATATCTACAAGGCCAAGGTGAAGAAGAACGGAACCCATTACCGTTGCATATGGGGCAAGGTTACAAGGCCTCATGGTAACAGTGGTGTTGTTCGTGCCAAATTCAAATCAAATCTTCCTCCCAAATCAATGGTAATAATTTACCAACACATTTTTTTTTCTTATTAATTGTGTTTAATAACGTTATCTTGACTTTTTGAGTGTGGATGCATCGCAGGGATCTCGTGTAAGAGTATTTATGTACCCAAGTAACATATGA

Protein sequence

>MS.gene007067.t1

MVKGHQGERVRLYVRGTILGYKRSKVNQYPNTSLVQIEGVNTKEEVAWYAGKKMAYIYKAKVKKNGTHYRCIWGKVTRPHGNSGVVRAKFKSNLPPKSMGSRVRVFMYPSNI